Name: RIP-seq to investigate RNAs associated with TAP-DRBD18 in Trypanosoma brucei bloodstream forms
Keywords: RIP-seq

OmicsDI

Browse
Submit Data
Databases
API
Help
Login

Dataset Information

0 Views

34 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 1

RIP-seq to investigate RNAs associated with TAP-DRBD18 in Trypanosoma brucei bloodstream forms

ABSTRACT: RIP-Seq of DRBD18 in Trypanosoma brucei bloodstream forms

INSTRUMENT(S): NextSeq 550

ORGANISM(S): Trypanosoma brucei brucei

DISEASE(S): Nagana

SUBMITTER: Christine Clayton

PROVIDER: E-MTAB-10735 | ArrayExpress | 2021-07-31

SECONDARY ACCESSION(S): ERP130569

REPOSITORIES: ArrayExpress, ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

primary

			Action	DRS
	E-MTAB-10735.idf.txt	Idf
	E-MTAB-10735.sdrf.txt	Txt

Items per page:

1 - 2 of 2

Similar Datasets

RIP-Seq of HnRNPF/H in Trypanosoma brucei bloodstream forms

Project description:mRNAs associates with HnRNPF/H in Trypanosoma brucei bloodstream forms

2021-08-31 | E-MTAB-10708 | ArrayExpress

RIP-Seq of HnRNPF/H in Trypanosoma brucei bloodstream forms

Project description:mRNAs associates with HnRNPF/H in Trypanosoma brucei bloodstream forms

2021-08-31 | E-MTAB-10708 | BioStudies

RNAi of XAC1 (Tb927.7.2780) in Trypanosoma brucei bloodstream forms

Project description:Gradient fractions of RNAi of XAC1 (Tb927.7.2780) in Trypanosoma brucei bloodstream forms. RNAi was induced using tetracycline and cell extracts were fractionated into polysomal and monosome-non-ribosome-associated fractions.

2017-12-16 | E-MTAB-6239 | ArrayExpress

RNAi against DRBD18 in Trypanosoma brucei bloodstream forms

Project description:RNAi against DRBD18 in Trypanosoma brucei bloodstream forms

2021-06-29 | E-MTAB-9783 | ArrayExpress

RNAi against DRBD18 in Trypanosoma brucei bloodstream forms

Project description:RNAi against DRBD18 in Trypanosoma brucei bloodstream forms

2021-06-29 | E-MTAB-9783 | BioStudies

RNAseq of Trypanosoma brucei brucei EATRO1125 bloodstream forms without EIF4E2 compared with add-back

Project description:RNAseq of Trypanosoma brucei brucei EATRO1125 bloodstream forms without EIF4E2 compared with add-back

2021-08-31 | E-MTAB-10719 | ArrayExpress

RNAi of XAC1 (Tb927.7.2780) in Trypanosoma brucei bloodstream forms

2017-12-16 | E-MTAB-6239 | BioStudies

RBP9-TAP RIPseq in Trypanosoma brucei

Project description:RBP9-TAP was expressed in bloodstream T. brucei and bound mRNA was pulled down using IgG beads and eluted via TEV-protease cleavage. rRNA was depleted using RNAseH and rRNA hybridizing oligos.

2020-05-30 | E-MTAB-9093 | ArrayExpress

NADH dehydrogenase of Trypanosoma brucei is important for efficient acetate production in bloodstream forms.

Project description:In the slender bloodstream form, Trypanosoma brucei mitochondria are repressed for many functions. Multiple components of mitochondrial complex I, NADH:ubiquinone oxidoreductase, are expressed in this stage, but electron transfer through complex I is not essential. Here we investigate the role of the parasite's second NADH:ubiquinone oxidoreductase, NDH2, which is composed of a single subunit that also localizes to the mitochondrion. While inducible knockdown of NDH2 had a modest growth effect in bloodstream forms, NDH2 null mutants, as well as inducible knockdowns in a complex I deficient background, showed a greater reduction in growth. Altering the NAD+/NADH balance would affect numerous processes directly and indirectly, including acetate production. Indeed, loss of NDH2 led to reduced levels of acetate, which is required for several essential pathways in bloodstream form T. brucei and which may have contributed to the observed growth defect. In conclusion our study shows that NDH2 is important, but not essential, in proliferating bloodstream forms of T. brucei, arguing that the mitochondrial NAD+/NADH balance is important in this stage, even though the mitochondrion itself is not actively engaged in the generation of ATP.

1000-01-01 | S-EPMC5225879 | BioStudies

Pyrimidine biosynthesis is not an essential function for Trypanosoma brucei bloodstream forms.

Project description:African trypanosomes are capable of both pyrimidine biosynthesis and salvage of preformed pyrimidines from the host, but it is unknown whether either process is essential to the parasite.Pyrimidine requirements for growth were investigated using strictly pyrimidine-free media, with or without single added pyrimidine sources. Growth rates of wild-type bloodstream form Trypanosoma brucei brucei were unchanged in pyrimidine-free medium. The essentiality of the de novo pyrimidine biosynthesis pathway was studied by knocking out the PYR6-5 locus that produces a fusion product of orotate phosphoribosyltransferase (OPRT) and Orotidine Monophosphate Decarboxylase (OMPDCase). The pyrimidine auxotroph was dependent on a suitable extracellular pyrimidine source. Pyrimidine starvation was rapidly lethal and non-reversible, causing incomplete DNA content in new cells. The phenotype could be rescued by addition of uracil; supplementation with uridine, 2'deoxyuridine, and cytidine allowed a diminished growth rate and density. PYR6-5(-/-) trypanosomes were more sensitive to pyrimidine antimetabolites and displayed increased uracil transport rates and uridine phosphorylase activity. Pyrimidine auxotrophs were able to infect mice although the infection developed much more slowly than infection with the parental, prototrophic trypanosome line.Pyrimidine salvage was not an essential function for bloodstream T. b. brucei. However, trypanosomes lacking de novo pyrimidine biosynthesis are completely dependent on an extracellular pyrimidine source, strongly preferring uracil, and display reduced infectivity. As T. brucei are able to salvage sufficient pyrimidines from the host environment, the pyrimidine biosynthesis pathway is not a viable drug target, although any interruption of pyrimidine supply was lethal.

2013-01-01 | S-EPMC3591441 | BioStudies

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data